When you connect github and edit a file the line breaks don't get carried back up to gitbook again.
How its looking in the original:

Downloaded code via the github link:

If you now push the file back up to gitbook the empty lines between the boxes don't get carried over. The spacing in the code before the push were not changed in any way. This sadly also happens for lists, basically rendering the whole github link useless...
Website after github push:
